RNA id: XM_026942447.2


Basic Information

Item Value
RNA id XM_026942447.2
length 3661
RNA type mRNA
GC content 0.49
exon number 30
gene id vars2
representative True

Chromosome Information

Item Value
chromosome id NC_047623.1
NCBI id CM018569.1
chromosome length 15305753
location 6406106 ~ 6422826 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TTTTATTTTGCTCGACGGGGAACGAAATACATAACTAACACATAACTAACACttaattaacagaaaaaaatctaattgcacataaatgttatatgttatatgctTTAATACAAGGTTAGTGTTTAGTTTtctctgaaatgtaaatgtatcatttaatttttatcagCCAGGTGATGAAGTGAGGAAGCGGTGACAGATTCCAACATGTCTGCGCCCTTAGAGTAACATCACCTCTCAGCGACTAAAGGTCATGTGGAGGCCCACCTGGGGCAGATGTTACAGACCAGGGTCTGGAGTGTGGCATACATGGAGACGCAGACTGTGTTCTCcaccttcctcctcctcttcatcacagCCCTTACAGTCTCTTAGGTCTCAGTCAGAAAAGGCCAAgcggaaaagaaagagagagacggcCATACTCAGCAGCGATGCTGACAGTGTTGGGATGAAATggtcagaaaaagaaaagataacatACACTGCTGCATTCTTGCCTGGAGAGAAGAAAGATACCACTCTGCCCCTCCCGCAGTCCTACAGCCCGGAATATGTGGAGTCGTGCTGGTATCAGTGGTGGGAGCAGCAGGGCTTCTTCAGCCCTGAGAAGCATAGTGAGATGCCACAAGCTGCGGATAAATATTTCTCCCTCTGTATACCACCACCGAATGTGACGGGCACGCTGCACCTCGGTCACGCTCTGACGGTGGCAATCGAGGACGCTTTGGCTCGCTGGCGGCGAATGCGAGGCTACAGAGTGTTGTGGGTGCCAGGCTGTGACCACGCTGGGATCGCAACACAGTCTGTGGTTGAGAGGAGGCTGTTACAGGAGCACGGAAAGCGCCGACAGGACTACAGTAGAGAGGAATTCCTGCAGGAGGTGTGGAGGTGGAAAAACGAgAAAGGAGATGAGATTTATCGACAGTTAAAGAGACTTGGAGCTTCACTGGATTGGAGCAGGGCCTGTTTCACCATGGACACGAGTTTCAGTAATGCCGTGACAGAGGCTTTCGTAAGGATGTGTGATTCAGGGCTGATCTATCGCTCTGAAAGCCTGGTCAACTGGAGCTGTGCACTAGAATCGGCCATCTCTGATATcgagGTTGACTCGAAGCAGTTATCAGGCCGGACTCTTCTGTCTGTTCCTGGCTACGAGCAAAAAGTCGAATTTGGGACCATGGTTACGTTCGCCTACCCGATAGAGGGACAGCAAGGAGAGGTTGCTGTATCGACCACTCGTCCTGAGACCATGCTGGGGGACGTGGCCATCGCTGTGCATCCTGACGATCCTCGataccagACTCTCCATGGAAAACAGTGCAGGCACCCGTTTACAGACAGGCTGTTACCCATAATCACAGACACTATGGTGGACATGGAATTGGGAACggGAGCTGTGAAGCTGACTCCGGCTCACGATCACACCGACTTCCTGCTCTCTCAGAGACACTTGCTGCCTCGCCTCACTGTGATCAGGGGAGACGGAACCATGACGTCGCTTTGTGGCCAGTGGCTCGAGgGCGTGAAGCGATTTGACGCCAGGGAGCGTGTGATTAGTGCACTGATGGAGAGAAAGTTGTTTAGAGGGAAGAGGGATCATCCCATGTCTTTACCGATTTGCAGCCGATCTGGAGATGTTATTGAACCTTTGCTGAAGAAACAGTGGTTTGTTCGATGTGAAGAAATGGCACAGAAGGCAATTCAAGTCGTGGATGATGGAGAGCTGGAAATAATTCCTCACTTCTACACTAAAACATGGAAGAATTGGCTCACTAATATCAGTGATTGGTGCATTTCCAGACAACTTTGGTGGGGACATCAAATTCCAGCTTACAGAGTGACATCACCACACTCTCCCACCCAGGAGGAGCAGTGGGTTTGGGGCCGGAGTGAATCGGAGGCCAGGGAACGTGCCGCTGCCAAATTTGGAGTGGACCCTAATGCTGTTGTTCTGACTCGAGATCCAGATGTGTTGGACACGTGGTTCTCTTCAGCTCTTTTCCCTTTCGCGATGTTGGGCTGGCCCGAGCAGACGGGGGACCTGAAGCAGTTTTATCCCAACACCATtctggaaacaggaagtgacctcatCTTTTTCTGGGTGGCCCGGATGGTAATGCTAGGCACTGAGCTGACTGGACAGCTGCCCTTCAAACAGgtgcTCTTCCACTCCCTGGTGAGAGATAAGCACGGTCGCAAGATGAGCAAGTCTTTGGGAAATGTCATCGATCCTTTGGATGTAATCTCAGGTGTCTCTCTGGAGAGACTTCAAGAAAAAGTAATGGAAGGAAACCTGGATGCAAGAGAGAAAACAGTTGCTTTGGAAGCACAGAGGAAAGATTTCCCAAAGGGTATCCCAGAATGTGGCACAGATGCGTTACGGTTTGCTCTCTGCTCCTACAAAGCCCAGGGAGAGGACATCAGCATGTCCGTGTCTCAGGTCCTGAGCTGTAGACACTTCTGTAATAAGATGTGGCAGACGGTCCGCTTCACTTTGGGAGCTCTGGTGGACACAGGAGCTCCTCTGACGCCACTGGAGGAGACCTTTCCTGTGTCgaggatagacagatggatcTGTTCACGActttacagtacagtaataCAGTGTGATAAAGGCTTTGAGAGCTATGAGCTCCACACAGTCACTTCCGCTCTGCATTCCTTCTGGCTCCACAGCCTCTGTGACGTGTATCTGGAATGCATTAAGCCAGTTTTGAAACAGGACGTGAATGAAAATGAAGCGCGAAACGAAGAGAAGCAGATTGCCACTGCTGTGCTCTATCACTGCGTGTCCATTTCTCTCCACCTCCTTTCCCCTTTCATGCCTTTTCTCACAGAGGAGCTCTGGCAAAGATTGCAGCCCTATACCCCAAACCCTACCACAGCTCCATCCAGTGTATGTGTGCAGCCATATCCAACAGCCTCTCAGCTGGGGCATTGGAACTTTCCTGAAGAGGAAACAGATTTTCCATTGGTACAGGAAGTGGTCAGGGTGGCCAGGTCACTTAGAGCCCAGTGTCACATGACGAAGGAAAGACCTGACATGTGGGCAGTGTGCACAGCAGAACAGGCACAAATACTCCACAGCTTCAGTCATGCTATCTGCATCCTGGGCCGGATCTCTAATCTTTATCTGCACTGTCCTCAGGAGGGTATCAGCTCCCTCCCGTTCTCCCCTGCACCACCTCCACATGAAGGGAGTACCATTGCAGTGACTGACCATTCAGTCCAGTTACACCTTGATGTACAGAGTTGCAGTAGTAGTAACAAACAGACGATCCTACTTTCTCAGCGTAGAGAAAAACTGCTCTTTAAACTTGAGCAATTCCTGTCTCGGACAAAAGTACCAAACTACACAGAGAAGGTTCCTGACCACATTCGGCAGGAGACAGGGAATAAGATCGCAGCATTGGAGCAGGAACTAAAGAGCATTGAGAAACAACTTTCAGGTTTGGAGCCGGTCAGAAAAGACTCCAGATAGTTAACtcaaagtacagtttggtaatGAAGCCAAATAATgtagaataaaatgaattacatAGTGCTAAAGCAGGAAGAACTAAAACTATTGACTGGGCCAAgtgaaataaagataaagaaattTTGTTGTACAAAGTATTAGTATACGTcataaatgttgaaataaattattcatcGTGTA

Function

GO:

id name namespace
GO:0006438 valyl-tRNA aminoacylation biological_process
GO:0005524 ATP binding molecular_function
GO:0004832 valine-tRNA ligase activity molecular_function
GO:0002161 aminoacyl-tRNA editing activity molecular_function

KEGG:

id description
K01873 VARS, valS; valyl-tRNA synthetase

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU476320 lncRNA downstream 228 6405306 ~ 6405878 (-) True G401403
TU476302 lncRNA downstream 46129 6359754 ~ 6359977 (-) True G401388
TU476159 lncRNA downstream 156070 6247456 ~ 6250036 (-) True G401259
TU476142 lncRNA downstream 217697 6187973 ~ 6188409 (-) True G401243
TU476110 lncRNA downstream 218843 6096979 ~ 6187263 (-) True G401230
XR_003404449.2 lncRNA upstream 12705 6435531 ~ 6437074 (-) True LOC113543850
TU476306 lncRNA upstream 12714 6435540 ~ 6437028 (-) False LOC113543850
TU476428 lncRNA upstream 143211 6566037 ~ 6567293 (-) True G401482
XR_004577578.1 lncRNA upstream 156202 6579028 ~ 6581192 (-) True LOC117596453
TU476432 lncRNA upstream 163027 6585853 ~ 6586574 (-) True G401486
XM_026942250.2 mRNA downstream 1097 6392969 ~ 6405009 (-) True mgat1b
XM_026942252.2 mRNA downstream 2178 6392969 ~ 6403928 (-) False mgat1b
XM_026942253.2 mRNA downstream 2182 6392969 ~ 6403924 (-) False mgat1b
XM_026942095.2 mRNA downstream 31606 6371617 ~ 6374500 (-) True polr1h
XM_026942116.2 mRNA downstream 35394 6360625 ~ 6370712 (-) True gtf2h4
XM_026942425.2 mRNA upstream 6272 6429098 ~ 6433839 (-) True c29h6orf47
XM_034301660.1 mRNA upstream 30694 6453520 ~ 6461157 (-) True si:ch211-152p11.4
XM_026942257.2 mRNA upstream 47376 6470202 ~ 6529172 (-) True adcy2b
XM_034301571.1 mRNA upstream 106354 6529180 ~ 6554991 (-) True tent4a
XM_034301572.1 mRNA upstream 106355 6529181 ~ 6554991 (-) False tent4a
TU476305 other downstream 31616 6371650 ~ 6374490 (-) False polr1h
TU476079 other downstream 230846 6172988 ~ 6175260 (-) True G401205
TU475643 other downstream 816359 5587398 ~ 5589747 (-) True G400815
XR_004577542.1 other downstream 1397645 4961102 ~ 5008461 (-) False sept7a
XR_003403516.2 other downstream 2273184 4124249 ~ 4132922 (-) False LOC113534693
XR_003404453.2 other upstream 13161 6435987 ~ 6436048 (-) True LOC113543912
TU476702 other upstream 838514 7261340 ~ 7276644 (-) False fndc5b
TU477767 other upstream 2725685 9148511 ~ 9161470 (-) False G402673
XR_004577570.1 other upstream 2804569 9227395 ~ 9251794 (-) False runx1t1
XR_003404456.1 other upstream 2954100 9376926 ~ 9377039 (-) True LOC113543915

Expression Profile